Table 3 WINGS input/output datasets for each component-type within our clinical omics use-case
From: Use of semantic workflows to enhance transparency and reproducibility in clinical omics
Component-type | Input dataset(s) | Output dataset(s) |
|---|---|---|
CreateLocalCOSMIC | GeneTrails_Genes | COSMICSubset |
CreateLocalSNP | GeneTrails_Genes | SNPSubset |
QueryLocalCOSMIC | Patient_Called_DNA_Variant_File, COSMICSubset | Queried_COSMIC_Result |
QueryLocalSNP | Patient_Called_DNA_Variant_File, SNPSubset | Queried_SNP_Result |
PredictProteinConsequence | Patient_Called_DNA_Variant_File, Transcript_File | Predicted_Protein_Consequence |
MergeAnnotation | Pateint_Called_Variant_File, Queried_COSMIC_Result, Queried_SNP_Result, Predicted_Protein_Consequence, In_House_Curation_of_DNA_Variants | Final_Annotation_of_DNA_Variants |